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This commit is contained in:
Heng Li
2017-04-09 14:59:39 -04:00
parent 49b8d23695
commit 79c9478f46
2 changed files with 59 additions and 2 deletions
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main.c
+2 -2
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@@ -83,11 +83,11 @@ int main(int argc, char *argv[])
fprintf(stderr, "Usage: minimap2 [options] <target.fa> [query.fa] [...]\n");
fprintf(stderr, "Options:\n");
fprintf(stderr, " Indexing:\n");
fprintf(stderr, " -H use homopolymer-compressed k-mer\n");
fprintf(stderr, " -k INT k-mer size [%d]\n", k);
fprintf(stderr, " -w INT minizer window size [{-k}*2/3]\n");
fprintf(stderr, " -I NUM split index for every ~NUM input bases [4G]\n");
fprintf(stderr, " -d FILE dump index to FILE []\n");
fprintf(stderr, " -H use homopolymer-compressed k-mer\n");
fprintf(stderr, " -l the 1st argument is a index file (overriding -k, -w and -I)\n");
// fprintf(stderr, " -b INT bucket bits [%d]\n", b); // most users wouldn't care about this
fprintf(stderr, " Mapping:\n");
@@ -107,7 +107,7 @@ int main(int argc, char *argv[])
fprintf(stderr, " ava10k: -Sw5 -L100 -m0 (PacBio/ONT all-vs-all read mapping)\n");
fprintf(stderr, " Input/Output:\n");
fprintf(stderr, " -t INT number of threads [%d]\n", n_threads);
// fprintf(stderr, " -B NUM process ~NUM bp in each batch [100M]\n");
// fprintf(stderr, " -B NUM process ~NUM bp in each mini-batch [100M]\n");
// fprintf(stderr, " -v INT verbose level [%d]\n", mm_verbose);
// fprintf(stderr, " -N use integer as target names\n");
fprintf(stderr, " -V show version number\n");